Genome demethylation and imprinting in the endosperm

Current Opinion in Plant Biology

Volumn 14, Issue 2, 2011, Pages 162-167

  Bauer, Matthew J ^a   Fischer, Robert L ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARABIDOPSIS PROTEIN; DEMETER PROTEIN, ARABIDOPSIS; GLYCOSIDASE; POLYCOMB PROTEIN, PLANT; REPRESSOR PROTEIN; TRANSACTIVATOR PROTEIN;

ANGIOSPERM; ARABIDOPSIS; DNA METHYLATION; ENDOSPERM; GENETICS; GENOME IMPRINTING; GROWTH, DEVELOPMENT AND AGING; MAIZE; METABOLISM; PLANT GENOME; PLANT SEED; REVIEW;

ANGIOSPERMS; ARABIDOPSIS; ARABIDOPSIS PROTEINS; DNA METHYLATION; ENDOSPERM; GENOME, PLANT; GENOMIC IMPRINTING; N-GLYCOSYL HYDROLASES; REPRESSOR PROTEINS; SEEDS; TRANS-ACTIVATORS; ZEA MAYS;

MAGNOLIOPHYTA;

EID: 79955079070     PISSN: 13695266     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.pbi.2011.02.006     Document Type: Review

References (47)

1. Jahnke S., Scholten S. Epigenetic resetting of a gene imprinted in plant embryos. Curr Biol 2009, 19:1677-1681.
2. Gehring M., Choi Y., Fischer R.L. Imprinting and seed development. Plant Cell 2004, 16(Suppl.):S203-S213.
3. Huh J.H., Bauer M.J., Hsieh T.F., Fischer R. Endosperm gene imprinting and seed development. Curr Opin Genet Dev 2007, 17:480-485.
4. Huh J.H., Bauer M.J., Hsieh T.F., Fischer R.L. Cellular programming of plant gene imprinting. Cell 2008, 132:735-744.
5. Borg M., Twell D. Life after meiosis: patterning the angiosperm male gametophyte. Biochem Soc Trans 2010, 38:577-582.
6. Yadegari R., Drews G.N. Female gametophyte development. Plant Cell 2004, 16(Suppl.):S133-S141.
7. Cokus S.J., Feng S., Zhang X., Chen Z., Merriman B., Haudenschild C.D., Pradhan S., Nelson S.F., Pellegrini M., Jacobsen S.E. Shotgun bisulphite sequencing of the Arabidopsis genome reveals DNA methylation patterning. Nature 2008, 452:215-219.
8. Law J.A., Jacobsen S.E. Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nat Rev Genet 2010, 11:204-220.
9. Choi Y., Gehring M., Johnson L., Hannon M., Harada J.J., Goldberg R.B., Jacobsen S.E., Fischer R.L. DEMETER, a DNA glycosylase domain protein, is required for endosperm gene imprinting and seed viability in Arabidopsis. Cell 2002, 110:33-42.
10. Gehring M., Huh J.H., Hsieh T.F., Penterman J., Choi Y., Harada J.J., Goldberg R.B., Fischer R.L. DEMETER DNA glycosylase establishes MEDEA polycomb gene self-imprinting by allele-specific demethylation. Cell 2006, 124:495-506.
11. Jullien P.E., Mosquna A., Ingouff M., Sakata T., Ohad N., Berger F. Retinoblastoma and its binding partner MSI1 control imprinting in Arabidopsis. PLoS Biol 2008, 6:e194.
12. Kinoshita T., Miura A., Choi Y., Kinoshita Y., Cao X., Jacobsen S.E., Fischer R.L., Kakutani T. One-way control of FWA imprinting in Arabidopsis endosperm by DNA methylation. Science 2004, 303:521-523.
13. Saze H., Mittelsten Scheid O., Paszkowski J. Maintenance of CpG methylation is essential for epigenetic inheritance during plant gametogenesis. Nat Genet 2003, 34:65-69.
14. Gehring M., Bubb K.L., Henikoff S. Extensive demethylation of repetitive elements during seed development underlies gene imprinting. Science 2009, 324:1447-1451.
15. Barlow D.P. Methylation and imprinting: from host defense to gene regulation?. Science 1993, 260:309-310.
16. Slotkin R.K., Martienssen R. Transposable elements and the epigenetic regulation of the genome. Nat Rev Genet 2007, 8:272-285.
17. Hsieh T.F., Ibarra C.A., Silva P., Zemach A., Eshed-Williams L., Fischer R.L., Zilberman D. Genome-wide demethylation of Arabidopsis endosperm. Science 2009, 324:1451-1454.
18. Frommer M., McDonald L.E., Millar D.S., Collis C.M., Watt F., Grigg G.W., Molloy P.L., Paul C.L. A genomic sequencing protocol that yields a positive display of 5-methylcytosine residues in individual DNA strands. Proc Natl Acad Sci U S A 1992, 89:1827-1831.
19. Mosher R.A., Melnyk C.W., Kelly K.A., Dunn R.M., Studholme D.J., Baulcombe D.C. Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis. Nature 2009, 460:283-286.
20. Lisch D. Epigenetic regulation of transposable elements in plants. Annu Rev Plant Biol 2009, 60:43-66.
21. Penfield S., Graham S., Graham I.A. Storage reserve mobilization in germinating oilseeds: Arabidopsis as a model system. Biochem Soc Trans 2005, 33:380-383.
22. Chitwood D.H., Timmermans M.C. Small RNAs are on the move. Nature 2010, 467:415-419.
23. Slotkin R.K., Vaughn M., Borges F., Tanurdzic M., Becker J.D., Feijo J.A., Martienssen R.A. Epigenetic reprogramming and small RNA silencing of transposable elements in pollen. Cell 2009, 136:461-472.
24. Schwartz Y.B., Pirrotta V. Polycomb silencing mechanisms and the management of genomic programmes. Nat Rev Genet 2007, 8:9-22.
25. Rodrigues J.C., Luo M., Berger F., Koltunow A.M. Polycomb group gene function in sexual and asexual seed development in angiosperms. Sex Plant Reprod 2010, 23:123-133.
26. Kohler C., Page D.R., Gagliardini V., Grossniklaus U. The Arabidopsis thaliana MEDEA Polycomb group protein controls expression of PHERES1 by parental imprinting. Nat Genet 2005, 37:28-30.
27. Kohler C., Hennig L., Spillane C., Pien S., Gruissem W., Grossniklaus U. The polycomb-group protein MEDEA regulates seed development by controlling expression of the MADS-box gene PHERES1. Genes Dev 2003, 17:1540-1553.
28. Villar C.B., Erilova A., Makarevich G., Trosch R., Kohler C. Control of PHERES1 imprinting in Arabidopsis by direct tandem repeats. Mol Plant 2009, 2:654-660.
29. Makarevich G., Villar C.B., Erilova A., Kohler C. Mechanism of PHERES1 imprinting in Arabidopsis. J Cell Sci 2008, 121:906-912.
30. Weinhofer I., Hehenberger E., Roszak P., Hennig L., Kohler C. H3K27me3 profiling of the endosperm implies exclusion of polycomb group protein targeting by DNA methylation. PLoS Genet 2010, 6.
31. Nowack M.K., Grini P.E., Jakoby M.J., Lafos M., Koncz C., Schnittger A. A positive signal from the fertilization of the egg cell sets off endosperm proliferation in angiosperm embryogenesis. Nat Genet 2006, 38:63-67.
32. Nowack M.K., Shirzadi R., Dissmeyer N., Dolf A., Endl E., Grini P.E., Schnittger A. Bypassing genomic imprinting allows seed development. Nature 2007, 447:312-315.
33. Kinoshita T., Yadegari R., Harada J.J., Goldberg R.B., Fischer R.L. Imprinting of the MEDEA polycomb gene in the Arabidopsis endosperm. Plant Cell 1999, 11:1945-1952.
34. Vielle-Calzada J.P., Thomas J., Spillane C., Coluccio A., Hoeppner M.A., Grossniklaus U. Maintenance of genomic imprinting at the Arabidopsis medea locus requires zygotic DDM1 activity. Genes Dev 1999, 13:2971-2982.
35. Tiwari S., Schulz R., Ikeda Y., Dytham L., Bravo J., Mathers L., Spielman M., Guzman P., Oakey R.J., Kinoshita T., et al. MATERNALLY EXPRESSED PAB C-TERMINAL, a novel imprinted gene in Arabidopsis, encodes the conserved C-terminal domain of polyadenylate binding proteins. Plant Cell 2008, 20:2387-2398.
36. Fitz Gerald J.N., Hui P.S., Berger F. Polycomb group-dependent imprinting of the actin regulator AtFH5 regulates morphogenesis in Arabidopsis thaliana. Development 2009, 136:3399-3404.
37. Kermicle J.L. Dependence of the R-mottled aleurone phenotype in maize on mode of sexual transmission. Genetics 1970, 66:69-85.
38. Chaudhuri S., Messing J. Allele-specific parental imprinting of dzr1, a posttranscriptional regulator of zein accumulation. Proc Natl Acad Sci U S A 1994, 91:4867-4871.
39. Danilevskaya O.N., Hermon P., Hantke S., Muszynski M.G., Kollipara K., Ananiev E.V. Duplicated fie genes in maize: expression pattern and imprinting suggest distinct functions. Plant Cell 2003, 15:425-438.
40. Gutierrez-Marcos J.F., Costa L.M., Dal Pra M., Scholten S., Kranz E., Perez P., Dickinson H.G. Epigenetic asymmetry of imprinted genes in plant gametes. Nat Genet 2006, 38:876-878.
41. Hermon P., Srilunchang K.O., Zou J., Dresselhaus T., Danilevskaya O.N. Activation of the imprinted Polycomb Group Fie1 gene in maize endosperm requires demethylation of the maternal allele. Plant Mol Biol 2007, 64:387-395.
42. Guo M., Rupe M.A., Danilevskaya O.N., Yang X., Hu Z. Genome-wide mRNA profiling reveals heterochronic allelic variation and a new imprinted gene in hybrid maize endosperm. Plant J 2003, 36:30-44.
43. Haun W.J., Laoueille-Duprat S., O'Connell M.J., Spillane C., Grossniklaus U., Phillips A.R., Kaeppler S.M., Springer N.M. Genomic imprinting, methylation and molecular evolution of maize Enhancer of zeste (Mez) homologs. Plant J 2007, 49:325-337.
44. Gutierrez-Marcos J.F., Costa L.M., Biderre-Petit C., Khbaya B., O'Sullivan D.M., Wormald M., Perez P., Dickinson H.G. Maternally expressed gene1 is a novel maize endosperm transfer cell-specific gene with a maternal parent-of-origin pattern of expression. Plant Cell 2004, 16:1288-1301.
45. Gutierrez-Marcos J.F., Pennington P.D., Costa L.M., Dickinson H.G. Imprinting in the endosperm: a possible role in preventing wide hybridization. Philos Trans R Soc Lond B Biol Sci 2003, 358:1105-1111.
46. Gregg C., Zhang J., Weissbourd B., Luo S., Schroth G.P., Haig D., Dulac C. High-resolution analysis of parent-of-origin allelic expression in the mouse brain. Science 2010, 329:643-648.
47. Gregg C., Zhang J., Butler J.E., Haig D., Dulac C. Sex-specific parent-of-origin allelic expression in the mouse brain. Science 2010, 329:682-685.